At this point, Brady should just serve the suspension. It's very unlikely that the Second Circuit would agree to rehear the case en banc or that the Supreme Court would grant cert. If the NFLPA (the union) doesn't like Goodell having the authority to make himself the arbitrator, make sure that's not in the next CBA.
It was a 2-1 ruling that only said the decision met the minimum legal standard.
It was not an endorsement of Goodell or the process.